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Pull requests: nf-core/sarek

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Pull requests list

Implementation of lofreq somatic and callparallel to sarek as variant callers enhancement New feature or request
#1602 opened Jul 24, 2024 by AitorPeseta Loading…
7 of 11 tasks
@nevinwu @AitorPeseta
2
Release 3.4.3
#1595 opened Jul 16, 2024 by maxulysse Loading…
11 tasks
6
Output definition
#1592 opened Jul 15, 2024 by FriederikeHanssen • Draft
11 tasks
2
add_dysgu_sarek
#1590 opened Jul 11, 2024 by poddarharsh15 Loading…
11 tasks
3.5
12
Updating the sentieon/bwamem-module
#1585 opened Jul 9, 2024 by asp8200 • Draft
11 tasks
2
increase memory for fgbio
#1584 opened Jul 9, 2024 by bounlu Loading…
3 of 11 tasks
3
vardictjava variant calling workflow
#1582 opened Jul 3, 2024 by eolaniru Loading…
11 tasks
3.5
7
Fix submission on GCP
#1581 opened Jul 2, 2024 by FriederikeHanssen • Draft
11 tasks
1
Update Sentieon Docs
#1579 opened Jul 1, 2024 by edmundmiller • Draft 3.5
@edmundmiller
1
test it out
#1574 opened Jun 20, 2024 by maxulysse Loading…
11 tasks
1
setting snpeff directory name to lowercase in tower.yml
#1572 opened Jun 18, 2024 by cmatKhan Loading…
3
build: Remove all the env_names
#1564 opened Jun 12, 2024 by edmundmiller • Draft
@edmundmiller
2
Split variantannotation in its own pipeline and import it
#1561 opened Jun 11, 2024 by maxulysse Loading…
11 tasks
7
WIP: Add sentieon tnseq
#1497 opened May 3, 2024 by SPPearce • Draft 3.5
1
Added Minimap2 alignment
#1486 opened Apr 25, 2024 by EgorGuga Loading…
8 of 10 tasks
3.5
9
Add module bcftools/norm to sarek (in progress)
#1483 opened Apr 25, 2024 by JC-Delmas Loading…
1 of 11 tasks
3.5
11
feat(nf-boost): add boost.cleanup = true
#1479 opened Apr 23, 2024 by maxulysse • Draft
11 tasks
5
feat(nf-schema): remove nf-validation and update to nf-schema
#1478 opened Apr 22, 2024 by maxulysse Loading…
11 tasks
3.5
3
[WIP] Benchmarking per pipeline / POC
#1448 opened Mar 22, 2024 by famosab • Draft
10 tasks
@famosab
1
Parabricks alignment help wanted Extra attention is needed
#1444 opened Mar 20, 2024 by Furentsu • Draft
10 tasks
3.5
@Furentsu
6
Sambamba
#1368 opened Dec 29, 2023 by stavgrossfeld • Draft
10 tasks
2
Replace DRAGMAP with NARFMAP
#1358 opened Dec 18, 2023 by edmundmiller • Draft
@edmundmiller
6
switch to using --write-index instead of samtools index
#1338 opened Nov 23, 2023 by FriederikeHanssen • Draft
4 tasks
3
implementation of goleft/indexcov
#1312 opened Nov 3, 2023 by lindenb Loading…
1 of 9 tasks
9
[WIP] --tools is now case insensitive
#1188 opened Aug 18, 2023 by adamrtalbot Loading…
10 tasks
1
28
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